Stefan Gretar Thorleifsson1, Ines Thiele. 1. Center for Systems Biology, Mechanical Engineering and Computer Science, University of Iceland, Reykjavik, Iceland.
Abstract
MOTIVATION: Genome-scale metabolic networks are widely used in systems biology. However, to date no freely available tool exists that ensures quality control during the reconstruction process. RESULTS: Here, we present a COBRA toolbox extension, rBioNet, enabling the construction of publication-level biochemical networks while enforcing necessary quality control measures. rBioNet has an intuitive user interface facilitating the reconstruction process for novices and experts. AVAILABILITY: The rBioNet is freely available from http://opencobra.sourceforge.net.
MOTIVATION: Genome-scale metabolic networks are widely used in systems biology. However, to date no freely available tool exists that ensures quality control during the reconstruction process. RESULTS: Here, we present a COBRA toolbox extension, rBioNet, enabling the construction of publication-level biochemical networks while enforcing necessary quality control measures. rBioNet has an intuitive user interface facilitating the reconstruction process for novices and experts. AVAILABILITY: The rBioNet is freely available from http://opencobra.sourceforge.net.
Authors: Juan Nogales; Steinn Gudmundsson; Eric M Knight; Bernhard O Palsson; Ines Thiele Journal: Proc Natl Acad Sci U S A Date: 2012-01-30 Impact factor: 11.205
Authors: Ines Thiele; Neil Swainston; Ronan M T Fleming; Andreas Hoppe; Swagatika Sahoo; Maike K Aurich; Hulda Haraldsdottir; Monica L Mo; Ottar Rolfsson; Miranda D Stobbe; Stefan G Thorleifsson; Rasmus Agren; Christian Bölling; Sergio Bordel; Arvind K Chavali; Paul Dobson; Warwick B Dunn; Lukas Endler; David Hala; Michael Hucka; Duncan Hull; Daniel Jameson; Neema Jamshidi; Jon J Jonsson; Nick Juty; Sarah Keating; Intawat Nookaew; Nicolas Le Novère; Naglis Malys; Alexander Mazein; Jason A Papin; Nathan D Price; Evgeni Selkov; Martin I Sigurdsson; Evangelos Simeonidis; Nikolaus Sonnenschein; Kieran Smallbone; Anatoly Sorokin; Johannes H G M van Beek; Dieter Weichart; Igor Goryanin; Jens Nielsen; Hans V Westerhoff; Douglas B Kell; Pedro Mendes; Bernhard Ø Palsson Journal: Nat Biotechnol Date: 2013-03-03 Impact factor: 54.908